AluSz
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000051 |
|---|---|
| TE superfamily | Alu |
| TE class | SINE |
| Species | Haplorrhini |
| Length | 312 |
| Kimura value | 7.68 |
| Tau index | 0.6244 |
| Description | AluSz subfamily |
| Comment | Alu elements derive from a pair of internally-deleted 7SL RNA monomers that are joined by an A-rich linker. This element is described in "Origin and evolution of Alu repetitive elements"; Jurka J.; Molecular Biology Intelligence Unit:The impact of short interspersed elements (SINEs) on the host genome (ed. Richard J. Maraia), R.G. Landes Company, Austin, pp.25-41 (1995) |
| Sequence |
GGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACTTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCCGGGCGTGGTGGCGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
|
TF motifs of the concenus sequence
Use FIMO to detect transcription factor motifs in the concenus sequence of the TE family.
| TE_family | TFBS | Start | End | Strand | Score | Matched sequence |
|---|---|---|---|---|---|---|
| AluSz | DOF5.1 | 292 | 310 | + | 15.65 | AAAAAAAAAAAAAAAAAAA |
| AluSz | DOF5.1 | 293 | 311 | + | 15.65 | AAAAAAAAAAAAAAAAAAA |
| AluSz | DOF5.1 | 294 | 312 | + | 15.65 | AAAAAAAAAAAAAAAAAAA |
| AluSz | DOF3.6 | 280 | 300 | - | 15.64 | TTTTTTTTTTTTTTTTTTGAG |
| AluSz | THRA | 57 | 74 | - | 15.47 | CTGACCTCAAGTGATCCG |
| AluSz | luna | 140 | 148 | - | 15.26 | ACCACGCCC |
| AluSz | ZNF135 | 206 | 219 | - | 15.26 | CCTCCGCCTCCCGG |
| AluSz | Klf3/8/12 | 140 | 148 | - | 15.24 | ACCACGCCC |
| AluSz | h | 149 | 158 | + | 14.94 | GGCGCGCGCC |
| AluSz | h | 149 | 158 | - | 14.94 | GGCGCGCGCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
